Alternatives and similar repositories for systemsgenetics

Users that are interested in systemsgenetics are comparing it to the libraries listed below

• im3sanger / dndscv
  dN/dS methods to quantify selection in cancer and somatic evolution
  ☆222Updated 3 weeks ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆94Updated 4 years ago
• davidaknowles / leafcutter
  Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae …
  ☆216Updated last year
• zhanxw / rvtests
  Rare variant test software for next generation sequencing data
  ☆139Updated 3 years ago
• VanLoo-lab / ascat
  ASCAT R package
  ☆181Updated 2 months ago
• csoneson / ARMOR
  Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
  ☆165Updated 6 months ago
• Hoohm / dropSeqPipe
  A SingleCell RNASeq pre-processing snakemake workflow
  ☆149Updated 2 years ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 5 years ago
• raerose01 / deconstructSigs
  deconstructSigs
  ☆141Updated 2 years ago
• hdng / clonevol
  Inferring and visualizing clonal evolution in multi-sample cancer sequencing
  ☆147Updated 4 years ago
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆192Updated 2 years ago
• lima1 / PureCN
  Copy number calling and variant classification using targeted short read sequencing
  ☆134Updated last month
• cbg-ethz / NGS-pipe
  NGS-pipe: next-generation sequencing pipelines for precision oncology
  ☆111Updated 6 years ago
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆136Updated 5 years ago
• PMBio / peer
  A factor analysis package
  ☆100Updated 13 years ago
• UMCUGenetics / MutationalPatterns
  R package for extracting and visualizing mutational patterns in base substitution catalogues
  ☆106Updated 2 years ago
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆109Updated 2 years ago
• nf-core / rnafusion
  RNA-seq analysis pipeline for detection of gene-fusions
  ☆159Updated this week
• stephenturner / annotables
  R data package for annotating/converting Gene IDs
  ☆163Updated 2 years ago
• broadinstitute / tensorqtl
  Ultrafast GPU-enabled QTL mapper
  ☆180Updated 2 months ago
• vals / umis
  Tools for processing UMI RNA-tag data
  ☆129Updated 2 years ago
• TrinityCTAT / Trinity_CTAT
  ☆116Updated last year
• konradjk / loftee
  ☆177Updated last year
• weizhouUMICH / SAIGE
  ☆194Updated 3 years ago
• hbctraining / Accessing_public_genomic_data
  Tutorials on accessing public reference and genomic data
  ☆30Updated 3 months ago
• bernatgel / karyoploteR
  karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome
  ☆315Updated this week
• mskcc / RNAseqDB
  ☆141Updated 7 years ago
• al2na / methylKit
  R package for DNA methylation analysis
  ☆231Updated 3 months ago
• genome / sciclone
  An R package for inferring the subclonal architecture of tumors
  ☆119Updated last year
• ENCODE-DCC / rna-seq-pipeline
  ☆151Updated 2 years ago